PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52501-52550 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | * | map_l150_m0_e0 | * | 94.4555 | 97.4708 | 91.6211 | 94.8011 | 501 | 13 | 503 | 46 | 4 | 8.6957 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 96.0523 | 98.2537 | 93.9474 | 90.3553 | 1069 | 19 | 1071 | 69 | 6 | 8.6957 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 96.9768 | 98.8095 | 95.2108 | 87.6725 | 1826 | 22 | 1829 | 92 | 8 | 8.6957 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7416 | 99.8545 | 99.6289 | 56.0363 | 6175 | 9 | 6175 | 23 | 2 | 8.6957 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6319 | 99.8474 | 99.4174 | 58.2620 | 3925 | 6 | 3925 | 23 | 2 | 8.6957 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m0_e0 | het | 95.4545 | 97.3913 | 93.5933 | 87.7139 | 336 | 9 | 336 | 23 | 2 | 8.6957 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | het | 82.8228 | 70.7902 | 99.7835 | 65.4154 | 21196 | 8746 | 21200 | 46 | 4 | 8.6957 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | het | 83.0715 | 71.1515 | 99.7894 | 67.1619 | 21788 | 8834 | 21792 | 46 | 4 | 8.6957 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | het | 83.1462 | 71.2597 | 99.7920 | 67.1300 | 22062 | 8898 | 22066 | 46 | 4 | 8.6957 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 56.9192 | 62.7451 | 52.0833 | 91.3514 | 32 | 19 | 25 | 23 | 2 | 8.6957 | |
| astatham-gatk | INDEL | * | map_l125_m0_e0 | het | 95.6440 | 95.2300 | 96.0616 | 91.1381 | 559 | 28 | 561 | 23 | 2 | 8.6957 | |
| bgallagher-sentieon | INDEL | * | map_l125_m0_e0 | het | 97.0529 | 97.9557 | 96.1667 | 90.6074 | 575 | 12 | 577 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m1_e0 | * | 86.5497 | 86.5497 | 86.5497 | 96.4640 | 148 | 23 | 148 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m2_e0 | * | 86.8852 | 86.4130 | 87.3626 | 96.6544 | 159 | 25 | 159 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m2_e1 | * | 86.6485 | 85.9459 | 87.3626 | 96.7337 | 159 | 26 | 159 | 23 | 2 | 8.6957 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.2187 | 99.8597 | 96.6309 | 38.9931 | 2135 | 3 | 1979 | 69 | 6 | 8.6957 | |
| gduggal-bwaplat | SNP | * | func_cds | * | 99.4779 | 99.2121 | 99.7452 | 34.2475 | 18007 | 143 | 18007 | 46 | 4 | 8.6957 | |
| gduggal-bwaplat | SNP | * | func_cds | het | 99.4076 | 99.2295 | 99.5864 | 39.9773 | 11075 | 86 | 11075 | 46 | 4 | 8.6957 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 57.0093 | 94.1144 | 0 | 0 | 61 | 46 | 4 | 8.6957 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 55.3398 | 93.8763 | 0 | 0 | 57 | 46 | 4 | 8.6957 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3078 | 99.3917 | 99.2240 | 48.4791 | 2941 | 18 | 2941 | 23 | 2 | 8.6957 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 96.5825 | 98.5542 | 94.6882 | 89.3152 | 818 | 12 | 820 | 46 | 4 | 8.6957 | |
| hfeng-pmm3 | SNP | tv | map_l100_m0_e0 | het | 99.3072 | 99.2523 | 99.3623 | 70.7621 | 7168 | 54 | 7167 | 46 | 4 | 8.6957 | |
| gduggal-snapplat | INDEL | I1_5 | map_siren | homalt | 85.7005 | 79.2079 | 93.3526 | 86.1508 | 960 | 252 | 969 | 69 | 6 | 8.6957 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m0_e0 | * | 75.6757 | 91.3043 | 64.6154 | 97.7586 | 42 | 4 | 42 | 23 | 2 | 8.6957 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m0_e0 | het | 71.2644 | 93.9394 | 57.4074 | 97.8296 | 31 | 2 | 31 | 23 | 2 | 8.6957 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2828 | 99.0685 | 99.4980 | 45.3418 | 4573 | 43 | 4559 | 23 | 2 | 8.6957 | |
| raldana-dualsentieon | INDEL | * | map_l150_m1_e0 | het | 96.8336 | 96.3743 | 97.2973 | 87.9068 | 824 | 31 | 828 | 23 | 2 | 8.6957 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e0 | het | 96.9552 | 96.4680 | 97.4473 | 88.6581 | 874 | 32 | 878 | 23 | 2 | 8.6957 | |
| raldana-dualsentieon | INDEL | * | map_l150_m2_e1 | het | 96.9025 | 96.3203 | 97.4918 | 88.7346 | 890 | 34 | 894 | 23 | 2 | 8.6957 | |
| qzeng-custom | INDEL | * | func_cds | het | 93.8897 | 98.1308 | 90.0000 | 52.8689 | 210 | 4 | 207 | 23 | 2 | 8.6957 | |
| ckim-dragen | SNP | * | map_siren | het | 98.5668 | 99.4945 | 97.6562 | 62.5377 | 90531 | 460 | 90541 | 2173 | 189 | 8.6977 | |
| gduggal-snapfb | SNP | tv | HG002complexvar | het | 98.4837 | 99.5363 | 97.4531 | 25.4817 | 150035 | 699 | 150338 | 3929 | 342 | 8.7045 | |
| dgrover-gatk | SNP | ti | * | het | 99.9394 | 99.9568 | 99.9221 | 18.8587 | 1281337 | 554 | 1281283 | 999 | 87 | 8.7087 | |
| ckim-dragen | SNP | ti | map_l125_m0_e0 | het | 97.4340 | 98.5598 | 96.3335 | 79.4732 | 8144 | 119 | 8145 | 310 | 27 | 8.7097 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.3543 | 98.5726 | 92.3394 | 77.6916 | 4696 | 68 | 4701 | 390 | 34 | 8.7180 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 56.5111 | 56.6123 | 56.4103 | 93.4064 | 625 | 479 | 638 | 493 | 43 | 8.7221 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | het | 93.6780 | 98.7414 | 89.1086 | 85.4382 | 8159 | 104 | 8157 | 997 | 87 | 8.7262 | |
| ckim-dragen | SNP | * | map_l125_m2_e0 | het | 97.7348 | 98.9665 | 96.5334 | 78.5462 | 29015 | 303 | 29016 | 1042 | 91 | 8.7332 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0436 | 96.7173 | 99.4069 | 53.0396 | 17265 | 586 | 17262 | 103 | 9 | 8.7379 | |
| jlack-gatk | SNP | ti | map_l100_m1_e0 | het | 96.3792 | 99.2318 | 93.6859 | 77.4968 | 29712 | 230 | 29705 | 2002 | 175 | 8.7413 | |
| hfeng-pmm3 | SNP | * | map_l100_m2_e1 | het | 99.5538 | 99.4499 | 99.6580 | 66.2190 | 46640 | 258 | 46629 | 160 | 14 | 8.7500 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7849 | 95.2033 | 78.0622 | 70.1093 | 913 | 46 | 854 | 240 | 21 | 8.7500 | |
| jlack-gatk | SNP | ti | map_siren | * | 98.3403 | 99.3782 | 97.3238 | 62.0115 | 99731 | 624 | 99716 | 2742 | 240 | 8.7527 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 90.2938 | 94.7900 | 86.2049 | 78.5292 | 4603 | 253 | 4568 | 731 | 64 | 8.7551 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | het | 92.9137 | 98.4304 | 87.9825 | 88.8885 | 5017 | 80 | 5015 | 685 | 60 | 8.7591 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0524 | 98.2806 | 99.8365 | 59.1178 | 34810 | 609 | 34800 | 57 | 5 | 8.7719 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2929 | 99.5560 | 99.0312 | 67.2462 | 17490 | 78 | 17480 | 171 | 15 | 8.7719 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.7313 | 74.9840 | 78.5619 | 87.2292 | 4676 | 1560 | 4720 | 1288 | 113 | 8.7733 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | het | 97.6312 | 98.8022 | 96.4876 | 75.1408 | 20951 | 254 | 20960 | 763 | 67 | 8.7811 | |